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Genetic diversity of group a rotavirus isolates found in Western Siberia in 2007–2011

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Abstract

Genetic analysis of group A rotavirus isolates detected in the feces of children admitted to hospitals in Novosibirsk and Omsk within four epidemic seasons—2007, 2007–2008, 2009–2010, and 2010–2011—was carried out. 1416 Group A rotavirus isolates were genotyped by the multiplex PCR method. It is shown that, in 2007–2011 in Western Siberia, isolates of the widespread genotypes G1P[8], G4P[8], G2P[4], and G3P[8] cocirculated. In a few cases, genotypes G9P[8], G2P[8], G3P[9], and G4P[6] have been determined. In 2008 in Omsk and in 2009 in Novosibirsk, dominant genotype G1P[8] was replaced by genotype G4P[8]. The occurrence and spectrum of circulating genotypes differed and changed every epidemic season in both cities. Phylogenetic analysis of nucleotide sequences of three genome fragments that encode proteins VP4 (VP8*), VP7, and VP6 showed that most of the Novosibirsk and Omsk isolates clustered together and exhibited a high degree of homology with isolates identified in other regions of Eurasia. In addition, for the first time in Novosibirsk, 14 rotavirus isolates (genotypes G9, G1 and G4) related to the rare subline P[8]b (OP354-like) of the gene encoding the protein VP4 were detected, while in Omsk only the isolate Omsk08-381/G9P[8]b was found. The results obtained in this study indicate the need for long-term monitoring of rotavirus isolates circulating in Western Siberia, which is important when choosing a rotavirus vaccine to immunize young children and to improve the diagnostic kits for the infection, as well as to understand the epidemiology and evolution of group A rotaviruses.

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Authors and Affiliations

  1. Institute of Chemical Biology and Fundamental Medicine, Siberian Branch, Russian Academy of Sciences, Novosibirsk, Russia

    E. V. Zhirakovskaya, A. Yu. Tikunov, A. M. Kurilshchikov & N. V. Tikunova

  2. Novosibirsk State University, Novosibirsk, Russia

    R. Kh. Aksanova, S. N. Sokolov & S. V. Netesov

  3. Federal Service on Customer Rights Protection and Human Well-Being Surveillance for Omsk Oblast, Omsk, Russia

    M. G. Gorbunova

Authors
  1. E. V. Zhirakovskaya
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  2. R. Kh. Aksanova
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  3. M. G. Gorbunova
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  4. A. Yu. Tikunov
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  5. A. M. Kurilshchikov
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  6. S. N. Sokolov
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  7. S. V. Netesov
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  8. N. V. Tikunova
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Corresponding author

Correspondence to E. V. Zhirakovskaya.

Additional information

Original Russian Text © E.V. Zhirakovskaya, R.Kh. Aksanova, M.G. Gorbunova, A.Yu. Tikunov, A.M. Kurilshchikov, S.N. Sokolov, S.V. Netesov, N.V. Tikunova, 2012, published in Molekulyarnaya Genetika, Mikrobiologiya i Virusologiya, 2012, No. 4, pp. 33–41.

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Zhirakovskaya, E.V., Aksanova, R.K., Gorbunova, M.G. et al. Genetic diversity of group a rotavirus isolates found in Western Siberia in 2007–2011. Mol. Genet. Microbiol. Virol. 27, 174–183 (2012). https://doi.org/10.3103/S0891416812040076

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  • DOI: https://doi.org/10.3103/S0891416812040076

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